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Old 06-23-2014, 08:18 AM   #20
Brian Bushnell
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Location: Walnut Creek, CA

Join Date: Jan 2014
Posts: 2,707

Originally Posted by woodydon View Post
I can't find error-correcting option in Also, in, "out=" seems outputs reads instead of sam files. Could you please give me a hint? Thanks!

bbmerge does not do error-correction; for that, you need to use the script "", e.g. in=reads.fq out=corrected.fq

And as Genomax implied, all of my programs are sensitive to file name extensions. If you say "out=reads.fasta" you'll get fasta; if you say "out=reads.sam.gz", you'll get gzipped sam, and so forth.
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